Parties d'ouvrages collectifs (1)
  1. 1. Pucci, F., & Rooman, M. (2016). A little walk from physical to biological complexity: protein folding and stability. In About various kinds of interactions: published in honor of Philippe Spindel’s 65th birthday. UMons University Press: edited by N. Boulanger and S. Detournay.
    2.   Articles dans des revues avec comité de lecture (61)
  2. 1. Bu, F., Adam, Y., Adamiak, R., Antczak, M., de Aquino, B. R., Badepally, N. G., Batey, R., Baulin, E., Boinski, P., Boniecki, M., Bujnicki, J. M., Carpenter, K. L., Chacon, J., Chen, S.-J., Chiu, W., Cordero, P., Das, N. K., Das, R., Dawson, W., DiMaio, F., Ding, F., Dock-Bregeon, A.-C., Dokholyan, N., Dror, R., Dunin-Horkawicz, S., Eismann, S., Ennifar, E., Esmaeeli, R., Farsani, M. A., Ferré-D’Amaré, A., Geniesse, C., Ghanim, G., Guzman, H. V., Hood, I., Huang, L., Jain, D. S., Jaryani, F., Jin, L., Joshi, A., Karelina, M., Kieft, J., Kladwang, W., Kmiecik, S., Koirala, D., Kollmann, M., Kretsch, R., Kurciński, M., Li, J., Li, S., Magnus, M., Masquida, B., Moafinejad, N., Mondal, A., Mukherjee, S., Nguyen, T. H. D., Nikolaev, G., Nithin, C., Nye, G., Pandaranadar Jeyeram, I., Perez, A., Pham, P., Piccirilli, J. A., Pilla, S. P., Pluta, R., Poblete, S., Ponce-Salvatierra, A., Popenda, M., Popenda, L., Pucci, F., Rangan, R., Ray, A., Ren, A., Sarzynska, J., Sha, C. M., Stefaniak, F., Su, Z., Suddala, K., Szachniuk, M., Townshend, R., Trachman, R., Wang, J., Wang, W., Watkins, A., Wirecki, T., Xiao, Y., Xiong, P., Xiong, Y., Yang, J., Yesselman, J. D., Zhang, J., Zhang, Y., Zhang, Z., Zhou, Y., Zok, T., Zhang, D., Zhang, S., Żyła, A., Westhof, E., & Miao, Z. (2025). RNA-Puzzles Round V: blind predictions of 23 RNA structures. Nature methods, 22(2), 399-411. doi:10.1038/s41592-024-02543-9
  3. 2. Turina, M. P., Petrosino, M., Enriquez Sandoval, C., Novak, L., Pasquo, A., Alexov, E., Alladin, M. A., Ascher, D., Babbi, G., Bakolitsa, C., Casadio, R. R., Cheng, J., Fariselli, P., Folkman, L., Kamandula, A., Katsonis, P., Li, M., Li, D., Lichtarge, O., Mahmud, S., Martelli, P. L., Pal, D., Panday, S. K., Pires, D. E. V., Portelli, S., Pucci, F., Rodrigues, C. H. M., Rooman, M., Savojardo, C., Schwersensky, M., Shen, Y., Strokach, A. V., Sun, Y., Woo, J., Radivojac, P., Brenner, S. E., Chiaraluce, R., Consalvi, V., & Capriotti, E. (2025). Assessing the predicted impact of single amino acid substitutions in MAPK proteins for CAGI6 challenges. Human genetics. doi:10.1007/s00439-024-02724-8
  4. 3. Hermans, P., Tsishyn, M., Schwersensky, M., Rooman, M., & Pucci, F. (2025). Exploring Evolution to Uncover Insights Into Protein Mutational Stability. Molecular biology and evolution, 42(1). doi:10.1093/molbev/msae267
  5. 4. Turina, M. P., Dal Cortivo, G., Enriquez Sandoval, C. A., Alexov, E., Ascher, D. B., Babbi, G., Bakolitsa, C., Casadio, R. R., Fariselli, P., Folkman, L., Kamandula, A., Katsonis, P., Li, D., Lichtarge, O., Martelli, P. L., Panday, S. K., Pires, D. E. V., Portelli, S., Pucci, F., Rodrigues, C. H. M., Rooman, M., Savojardo, C., Schwersensky, M., Shen, Y., Strokach, A. V., Sun, Y., Woo, J., Radivojac, P., Brenner, S. E., Dell’Orco, D., & Capriotti, E. (2024). Assessing the predicted impact of single amino acid substitutions in calmodulin for CAGI6 challenges. Human genetics. doi:10.1007/s00439-024-02720-y
  6. 5. Zhang, J., Kinch, L., Katsonis, P., Lichtarge, O., Jagota, M., Song, Y. S., Sun, Y., Shen, Y., Kuru, N., Dereli, O., Adebali, O., Alladin, M. A., Pal, D., Capriotti, E., Turina, M. P., Savojardo, C., Martelli, P. L., Babbi, G., Casadio, R. R., Pucci, F., Rooman, M., Cia Beriain, G., Tsishyn, M., Strokach, A., Hu, Z., van Loggerenberg, W., Roth, F. P., Radivojac, P., Brenner, S. E., Cong, Q., & Grishin, N. (2024). Assessing predictions on fitness effects of missense variants in HMBS in CAGI6. Human genetics. doi:10.1007/s00439-024-02680-3
  7. 6. Li, D., Pucci, F., & Rooman, M. (2024). Prediction of Paratope–Epitope Pairs Using Convolutional Neural Networks. International Journal of Molecular Sciences (CD-ROM), 25(10), 5434. doi:10.3390/ijms25105434
  8. 7. Tsishyn, M., Cia Beriain, G., Hermans, P., Kwasigroch, J.-M., Rooman, M., & Pucci, F. (2024). FiTMuSiC: leveraging structural and (co)evolutionary data for protein fitness prediction. Human genomics, 18(1). doi:10.1186/s40246-024-00605-9
  9. 8. Yang, Y., Wei, Z., Cia Beriain, G., Song, X., Pucci, F., Rooman, M., Xue, F., & Hou, Q. (2024). MHCII-peptide presentation: an assessment of the state-of-the-art prediction methods. Frontiers in immunology, 15. doi:10.3389/fimmu.2024.1293706
  10. 9. Pucci, F., Zerihun, M. B., Rooman, M., & Schug, A. (2024). pycofitness—Evaluating the fitness landscape of RNA and protein sequences. Bioinformatics, 40(2). doi:10.1093/bioinformatics/btae074
  11. 10. Tsishyn, M., Pucci, F., & Rooman, M. (2024). Quantification of biases in predictions of protein–protein binding affinity changes upon mutations. Briefings in bioinformatics, 25(1). doi:10.1093/bib/bbad491
  12. 11. Shen, L., Liu, Y., Chen, L., Lei, T., Ren, P., Ji, M., Song, W., Lin, H., Su, W., Wang, S., Rooman, M., & Pucci, F. (2024). Genomic basis of environmental adaptation in the widespread poly-extremophilic Exiguobacterium group. The I S M E Journal, 18(1). doi:10.1093/ismejo/wrad020
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